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Comparative transcriptome analysis identifies differentially expressed genes between normal and late-blooming Siberian apricot

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Abstract

Blooming date is an important trait in fruit tree species. Although several quantitative trait loci confirming blooming date were identified in Prunus spp., the molecular mechanism underlying it remains unclear. Arising from this, the transcriptomes of normal blooming and late-blooming Siberian apricot (P. sibirica L.) flower buds were analyzed using RNA-seq technology. A total of 68,855 unigenes were de novo assembled, among which 1204 were differentially expressed between normal and late blooming. Gene ontology enrichment analysis revealed that biological processes were enriched with metabolic processes. The catalytic-related gene transcripts between the two types of blooming were significantly changed in the molecular function. Kyoto Encyclopedia of Genes and Genomes pathway analysis showed that 156 genes were successfully annotated and 75 pathways enriched. Genes for gibberellin biosynthesis were up-regulated in normal blooming, whereas abscisic acid degradation-related genes were also up-regulated in normal blooming. Moreover, circadian rhythms related genes including EARLY FLOWERING 4, LATE ELONGATED HYPOCOTYL and CIRCANDIAN CLOCK ASSOCIATED1 were all up-regulated in normal blooming, indicating that circadian rhythms have a very important role in controlling blooming date. Furthermore, zinc finger protein CONSTANS-LIKE 12 was blasted onto the quantitative trait loci region on linkage group 4 in peach. However, changes in the abundance of key flowering genes such as SUPPRESSOR OF OVEREXPRESSION OF CONSTANS 1, FLOWERING LOCU T, LEAFY and FLOWERING LOCUS C were not significantly different, indicating that further investigation should explore the function of these genes on blooming date. The outcomes of this study will provide a valuable platform for further research on the molecular mechanism of blooming date in Prunus.

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Acknowledgements

We wish to thank Aohan Forestry Bureau, Inner Mongolia Autonomous Region and Chengde Forestry Bureau in China for their help in collecting the samples.

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  1. Zhe Wang and Shuang Song have contributed equally to this work.

Authors and Affiliations

  1. Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, Center for Computational Biology, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, 100083, People’s Republic of China

    Zhe Wang, Shuang Song, Songbai Sheng & Xiaoming Pang

  2. Center for Computational Biology, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, 100083, People’s Republic of China

    Zhe Wang & Rongling Wu

  3. Inner Mongolia Hesheng Ecological Science and Technology Research Institute, Huhhot, 011517, People’s Republic of China

    Ju Tian

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Correspondence to Xiaoming Pang.

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Project funding: This work was funded by the Fundamental Research Funds for the Central Universities (BLYJ201517), and the Program for New Century Excellent Talents in University by the Ministry of Education, China (NCET-10-0223).

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Wang, Z., Song, S., Sheng, S. et al. Comparative transcriptome analysis identifies differentially expressed genes between normal and late-blooming Siberian apricot. J. For. Res. 30, 2277–2288 (2019). https://doi.org/10.1007/s11676-018-0825-0

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